Reviewed, UniProtKB/Swiss-Prot Q93ZB6 (DCUP1_ARATH)

Names and origin

Protein names

Recommended name:
    Uroporphyrinogen decarboxylase 1, chloroplastic
      Short name=URO-D1
      Short name=UPD1
    EC=4.1.1.37

Gene names

Ordered Locus Names:	At3g14930
ORF Names:	K15M2.7

Organism

Arabidopsis thaliana (Mouse-ear cress) [Complete proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Arabidopsis

Protein attributes

Sequence length	418 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at transcript level.

General annotation (Comments)

Function	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III By similarity.
Catalytic activity	Uroporphyrinogen III = coproporphyrinogen + 4 CO2.
Pathway	Porphyrin metabolism; protoporphyrin-IX biosynthesis; coproporphyrinogen-III from 5-aminolevulinate: step 4/4.
Subunit structure	Homodimer By similarity.
Subcellular location	Plastid › chloroplast Potential.
Sequence similarities	Belongs to the uroporphyrinogen decarboxylase family.
Sequence caution	The sequence BX824686 differs from that shown. Reason: Miscellaneous discrepancy. Sequencing errors.

Ontologies

Keywords
Biological process	Chlorophyll biosynthesis Porphyrin biosynthesis
Cellular component	Chloroplast Plastid
Coding sequence diversity	Alternative splicing
Domain	Transit peptide
Molecular function	Decarboxylase Lyase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	chlorophyll biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	chloroplast stroma Inferred from direct assay. Source: TAIR
Molecular function	uroporphyrinogen decarboxylase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q93ZB6-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Isoform 2 (identifier: Q93ZB6-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-77: Missing.

Note: May be due to a competing acceptor splice site. No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Transit peptide	1 – ?		Chloroplast Potential
	Chain	? – 418		Uroporphyrinogen decarboxylase 1, chloroplastic		PRO_0000376071
Regions
	Region	80 – 84	5	Substrate binding By similarity
Sites
	Binding site	99	1	Substrate By similarity
	Binding site	129	1	Substrate By similarity
	Binding site	130	1	Substrate By similarity
	Binding site	206	1	Substrate By similarity
	Binding site	261	1	Substrate By similarity
	Binding site	376	1	Substrate By similarity
	Site	130	1	Transition state stabilizer By similarity
Natural variations
	Alternative sequence	1 – 77	77	Missing in isoform 2.		VSP_037402
Experimental info
	Sequence conflict	36	1	V → G in AAL15294. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified May 26, 2009. Version 2. Checksum: F8A78980A6B08CB2	FASTA	418	46,254
	10 20 30 40 50 60 MSLSSPTSAC SSSRCYSSGL SFPIGFGSNP INVGLVCYPK RYSIAARKFV VACSSSSSDP 70 80 90 100 110 120 LLVKAAKGQA ISRPPAWMMR QAGRYMAVYQ KLAKKHPSFR ERSENTDLIV EISLQPWQAF 130 140 150 160 170 180 RPDGVIIFSD ILTPLPAFGV PFDIEEVKGP VIQSPIRTEE DMKRLHPIDF EKLQFVGDSL 190 200 210 220 230 240 KILRREVGEH AAVLGFVGAP WTIATYIVEG GTTRTYTVIK NMCHTAPDVL RALLSHLTKA 250 260 270 280 290 300 ITEYVVYQVE HGAHCIQIFD SWGGQLTPEM WERWSKPYIE EIIHAVKKRC PDTPIVFYIN 310 320 330 340 350 360 GNGGLLERMK GTGADVIGLD WTVDMADGRR RLGSEVSVQG NVDPAYLFSP LPALTEEIER 370 380 390 400 410 VVKCAGPKGH ILNLGHGVLV GTPEEAVAHF FETARNLDYQ TLFQNHVPAE KAEPELVV
	Isoform 2. Checksum: 3554BCF60863A911	FASTA	341	38,268
	10 20 30 40 50 60 MMRQAGRYMA VYQKLAKKHP SFRERSENTD LIVEISLQPW QAFRPDGVII FSDILTPLPA 70 80 90 100 110 120 FGVPFDIEEV KGPVIQSPIR TEEDMKRLHP IDFEKLQFVG DSLKILRREV GEHAAVLGFV 130 140 150 160 170 180 GAPWTIATYI VEGGTTRTYT VIKNMCHTAP DVLRALLSHL TKAITEYVVY QVEHGAHCIQ 190 200 210 220 230 240 IFDSWGGQLT PEMWERWSKP YIEEIIHAVK KRCPDTPIVF YINGNGGLLE RMKGTGADVI 250 260 270 280 290 300 GLDWTVDMAD GRRRLGSEVS VQGNVDPAYL FSPLPALTEE IERVVKCAGP KGHILNLGHG 310 320 330 340 VLVGTPEEAV AHFFETARNL DYQTLFQNHV PAEKAEPELV V

References

[1]	"Structural analysis of Arabidopsis thaliana chromosome 3. II. Sequence features of the 4,251,695 bp regions covered by 90 P1, TAC and BAC clones." Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Tabata S. DNA Res. 7:217-221(2000) [PubMed: 10907853] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[2]	"Empirical analysis of transcriptional activity in the Arabidopsis genome." Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R. Science 302:842-846(2003) [PubMed: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Strain: cv. Columbia.
[3]	"Whole genome sequence comparisons and 'full-length' cDNA sequences: a combined approach to evaluate and improve Arabidopsis genome annotation." Castelli V., Aury J.-M., Jaillon O., Wincker P., Clepet C., Menard M., Cruaud C., Quetier F., Scarpelli C., Schaechter V., Temple G., Caboche M., Weissenbach J., Salanoubat M. Genome Res. 14:406-413(2004) [PubMed: 14993207] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Strain: cv. Columbia.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AP000370 Genomic DNA. Translation: BAA97056.1. AY057663 mRNA. Translation: AAL15294.1. AY136476 mRNA. Translation: AAM97141.1. BT008826 mRNA. Translation: AAP68265.1. BX824686 mRNA. No translation available.
IPI	IPI00524385. IPI00524782.
RefSeq	NP_566495.1. NP_850587.1. NP_974316.1.
UniGene	At.6655 Rra.4299 Rsa.2772
3D structure databases
HSSP	HSSP built from PDB template 1J93 based on UniProtKB Q42967.
ModBase	Search...
Protein-protein interaction databases
STRING	Q93ZB6.
Proteomic databases
PRIDE	Q93ZB6.
Genome annotation databases
GeneID	820722.
GenomeReviews	Gene locus AT3G14930 in contig BA000014_GR.
KEGG	ath:AT3G14930.
Organism-specific databases
TAIR	At3g14930.
Phylogenomic databases
eggNOG	KOG2872.
HOGENOM	HBG628392.
InParanoid	Q93ZB6.
OMA	QAGRYHK.
Gene expression databases
Genevestigator	Q93ZB6.
Family and domain databases
InterPro	IPR006361. Uroporphyrinogen_deCO2ase_HemE. IPR000257. Uroporphyrinogen_deCOase. [Graphical view]
PANTHER	PTHR21091:SF2. HemE. 1 hit.
Pfam	PF01208. URO-D. 1 hit. [Graphical view]
TIGRFAMs	TIGR01464. hemE. 1 hit.
PROSITE	PS00906. UROD_1. 1 hit. PS00907. UROD_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DCUP1_ARATH

Accession

Primary (citable) accession number: Q93ZB6
Secondary accession number(s): Q9LKB1

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 26, 2009
Last sequence update:	May 26, 2009
Last modified:	February 9, 2010
This is version 56 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)